RNA Sequencing

A) You can get MORE information than from a microarray for a good reference.

B) You don't have to have a perfect reference.

C) You can use it to IMPROVE your reference.

D) You don't have a model organism.

GOALS

We have a wide array of students this week, with organisms from Bacteria to poorly sequenced plants and animals. This course will try to give you some basic tools and workflows to analyze multiple data types on HPCC style resources to get your analysis moving as quickly as possible. You should leave here tomorrow with improved understanding of some of the following:

I) How to use iCER resources to do analysis

II) Some of the more fundamental considerations when setting up an RNA sequencing experiment

III) A set of tools/workflows to use under particular experimental designs

IV) An idea of where and how to find additional tools for future analysis

V) An understanding of what "reproducible research" means in relation to RNAseq, and how to begin the process.

Ready?

How Does This Webpage Work?

We will have three types of text. Material that is part of a discussion, which will be in plain text, like this:

The user can substitute any number in the green boxes for their own. Using the example values proided from the top table, one would need 99 samples per group. However, if the user changes the coefficient of variation to be 0.6, the number of sample per group drops to 16.